NMR paper Using NMR as a probe of protein structure and function.

		BioNMR > Educational resources > Journal club
[NMR paper] Using NMR as a probe of protein structure and function.

Webservers

NMR processing:

MDD

NMR assignment:

Backbone:

Side-chains:

NOEs:

Structure from NMR restraints:

Ab initio:

Fragment-based:

Rosetta-NMR (Robetta)

Template-based:

GeNMR

I-TASSER

Refinement:

Amber

Structure from chemical shifts:

Fragment-based:

Homology-based:

Torsion angles from chemical shifts:

Preditor

TALOS

Promega- Proline

Secondary structure from chemical shifts:

CSI (via RCI server)

TALOS

MICS caps, β-turns

d2D

PECAN

Flexibility from chemical shifts:

RCI

Interactions from chemical shifts:

HADDOCK

Chemical shifts re-referencing:

NMR model quality:

NOEs, other restraints:

Chemical shifts:

RDCs:

Pseudocontact shifts:

Protein geomtery:

SAVES2 or SAVES4

Quality Control Check

NMR spectrum prediction:

FANDAS

MestReS

V-NMR

Flexibility from structure:

Backbone S2

Methyl S2

B-factor

Molecular dynamics:

Gromacs

Amber

Antechamber

Chemical shifts prediction:

From structure:

Shiftx2

Sparta+

Camshift

CH3shift- Methyl

ArShift- Aromatic

ShiftS

Proshift

PPM

CheShift-2- Cα

From sequence:

Shifty

Camcoil

Poulsen_rc_CS

Disordered proteins:

MAXOCC

Format conversion & validation:

CCPN

From NMR-STAR 3.1

Validate NMR-STAR 3.1

NMR sample preparation:

Protein disorder:

DisMeta

Protein solubility:

Isotope labeling:

Solid-state NMR:

Thread Tools

Search this Thread

Rate Thread

Display Modes

11-18-2010, 08:31 PM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,732

Points: 193,617, Level: 100

Level up: 0%, 0 Points needed

Activity: 50.7%

Last Achievements

Award-Showcase

NMR Credits: 0

NMR Points: 193,617

Downloads: 0

Uploads: 0

Using NMR as a probe of protein structure and function.

Using NMR as a probe of protein structure and function.

Related Articles Using NMR as a probe of protein structure and function.

Biochem Soc Trans. 1999 Aug;27(4):701-13

Authors: Malthouse JP

PMID: 10917670 [PubMed - indexed for MEDLINE]

Source: PubMed

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
Recent contributions from solid-state NMR to the understanding of membrane protein structure and function. Recent contributions from solid-state NMR to the understanding of membrane protein structure and function. Recent contributions from solid-state NMR to the understanding of membrane protein structure and function. Curr Opin Chem Biol. 2011 Aug 19; Authors: Judge PJ, Watts A Abstract The plasma membrane functions as a semi-permeable barrier, defining the interior (or cytoplasm) of an individual cell. This highly dynamic and complex macromolecular assembly comprises predominantly lipids and proteins held together by entropic forces and...	nmrlearner	Journal club	0	08-25-2011 04:10 PM
[Question from NMRWiki Q&A forum] Tuning probe failed after a dual probe was replaced with a BBI probe Tuning probe failed after a dual probe was replaced with a BBI probe We generally use Dual to run 13C and BBI to run 2D. After changed the probe, the command "edhead" was used to set the probe. Put the sample tube, lock the solvent, and then type "atma" to tune the probe. We always do it like this, but now we can not tune the proton after installed the BBI probe (13C is OK). The dip can not be found by "atma", and "atmm" was also not work on forming a dip. What is the most possible reason for this error? How to solve it and avoid it in the future ? Thanks. (Instrument: Bruker 400 MHz,...	nmrlearner	News from other NMR forums	0	08-23-2011 05:31 PM
Site-Directed Methyl Group Labeling as an NMR Probe of Structure and Dynamics in Supramolecular Protein Systems: Applications to the Proteasome and to the ClpP Protease Site-Directed Methyl Group Labeling as an NMR Probe of Structure and Dynamics in Supramolecular Protein Systems: Applications to the Proteasome and to the ClpP Protease Tomasz L. Religa, Amy M. Ruschak, Rina Rosenzweig and Lewis E. Kay http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/jacsat/0/jacsat.ahead-of-print/ja202259a/aop/images/medium/ja-2011-02259a_0002.gif Journal of the American Chemical Society DOI: 10.1021/ja202259a http://feeds.feedburner.com/~ff/acs/jacsat?d=yIl2AUoC8zA http://feeds.feedburner.com/~r/acs/jacsat/~4/rQfCMlQFoW8	nmrlearner	Journal club	0	05-20-2011 09:17 PM
Preparation of protein samples for NMR structure, function, and small-molecule screening studies. Preparation of protein samples for NMR structure, function, and small-molecule screening studies. Preparation of protein samples for NMR structure, function, and small-molecule screening studies. Methods Enzymol. 2011;493:21-60 Authors: Acton TB, Xiao R, Anderson S, Aramini J, Buchwald WA, Ciccosanti C, Conover K, Everett J, Hamilton K, Huang YJ, Janjua H, Kornhaber G, Lau J, Lee DY, Liu G, Maglaqui M, Ma L, Mao L, Patel D, Rossi P, Sahdev S, Shastry R, Swapna GV, Tang Y, Tong S, Wang D, Wang H, Zhao L, Montelione GT In this chapter, we...	nmrlearner	Journal club	0	03-05-2011 01:02 PM
[NMR paper] Structure, dynamics and function of the outer membrane protein A (OmpA) and influenza Structure, dynamics and function of the outer membrane protein A (OmpA) and influenza hemagglutinin fusion domain in detergent micelles by solution NMR. Related Articles Structure, dynamics and function of the outer membrane protein A (OmpA) and influenza hemagglutinin fusion domain in detergent micelles by solution NMR. FEBS Lett. 2003 Nov 27;555(1):139-43 Authors: Tamm LK, Abildgaard F, Arora A, Blad H, Bushweller JH Recent progress from our laboratories to determine structures of small membrane proteins (up to 20 kDa) in detergent micelles...	nmrlearner	Journal club	0	11-24-2010 09:16 PM
[NMR paper] Oxygen as a paramagnetic probe of membrane protein structure by cysteine mutagenesis Oxygen as a paramagnetic probe of membrane protein structure by cysteine mutagenesis and (19)F NMR spectroscopy. Related Articles Oxygen as a paramagnetic probe of membrane protein structure by cysteine mutagenesis and (19)F NMR spectroscopy. J Am Chem Soc. 2002 Feb 27;124(8):1778-81 Authors: Luchette PA, Prosser RS, Sanders CR Oxygen solubility increases toward the hydrophobic interior of membranes. Using NMR, this O(2) solubility gradient gives rise to an exquisite range of position-dependent paramagnetic effects at partial pressures of 100...	nmrlearner	Journal club	0	11-24-2010 08:49 PM
Structure and function of G protein-coupled receptors using NMR spectroscopy Structure and function of G protein-coupled receptors using NMR spectroscopy Publication year: 2010 Source: Progress in Nuclear Magnetic Resonance Spectroscopy, In Press, Accepted Manuscript, Available online 12 May 2010</br> Joseph A., Goncalves , Shivani, Ahuja , Sina, Erfani , Markus, Eilers , Steven O., Smith</br> More...	nmrlearner	Journal club	0	08-16-2010 03:50 AM
Finding protein function from its NMR structure For proteomics folks who gamble with their careers by promising discovery of protein function from NMR structures that may not look like any known proteins. Find the best structural matches in a protein database DALI CE DEJAVU Align structure of your protein with several proteins of your interest MASS MaltiProt	nmrlearner	Structural analysis	1	09-19-2006 12:11 PM

« Previous Thread | Next Thread »

Posting Rules
You may not post new threads You may not post replies You may not post attachments You may not edit your posts BB code is On Smilies are On [IMG] code is On HTML code is On Trackbacks are Off Pingbacks are Off Refbacks are Off